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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTGACAGCACTGATAGTGAGAAACAAGCTTTTTGTAGCGAATGCTGGTGATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGGgtccgcataatatttcttctttattttgcacgcttcttgaaatttaagcattataacataagatatgttttcattctgccttggtag

Basic information

species Oryza sativa
transcript LOC_Os01g36080.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g36080.4 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv08s0040g00760.t01 (Vitis vinifera), 5'ss of exon 9
AGTGACAGCACTGATAGTGAGAAACAAGCTTTTTGTAGCGAATGCTGGTGATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGGgtccgcataatatttcttctttattt---tgcacgctt--------cttgaaatt-taagca--ttataacataagatatgttttcattctgccttggtag-------------------------------------------------
|||  | || || ||||| ||||||||||||||||| || ||||||||||||||| || ||||  |    || |||||     | ||| || | |  | |||  || ||   |   ||  | | ||   ||||   ||        | ||| ||   ||| |  ||| ||  | |  |    || | |   || ||  |||                                                 
AGTTGCTGCCCTAATAGTTAGAAACAAGCTTTTTGTTGCTAATGCTGGTGATTGCAGGACAATCTTATGTCGAGCTGGCTGTGCTTTTGCTTTAAGTAAGgtgagcttagactgatttaatcagttaaatgcatatttgaatggtacctgagatcacaaggaccttacaatttgacttcaaattccgtctggctttcttagttaactataaggtggtgtattattcttccaataattgactatggattag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|29676790|gb|CB673065.1|CB673065
EST:     ATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGG                         GATCATGTTGCTAGTTGTCCAAAGGAAAGAGAACGGATTGTAAAGGAAGGA
genomic: ATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGGgtccgcataa ... gccttggtagGATCATGTTGCTAGTTGTCCAAAGGAAAGAGAACGGATTGTAAAGGAAGGA
EST: gi|29663423|gb|CB659698.1|CB659698
EST:     ATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGG                         GATCATGTTGCTAGTTGTCCAAAGGAAAGAGAACGGATTGTAAAGGAAGGA
genomic: ATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGGgtccgcataa ... gccttggtagGATCATGTTGCTAGTTGTCCAAAGGAAAGAGAACGGATTGTAAAGGAAGGA
EST: gi|29617856|gb|CB622868.1|CB622868
EST:     ATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGN                         GATCATGTTGCTAGTTGTCCAAAGGAAAGAGAACGGATTGTAAAG
genomic: ATTGCCGGGCAATTCTGAACCGTGCTGGTGAACCATTTCCTATGACCAGGgtccgcataa ... gccttggtagGATCATGTTGCTAGTTGTCCAAAGGAAAGAGAACGGATTGTAAAG